This method doesn't work. Does each simulation have to complete the 10 ns in order to move on the analysis step, or can I use incomplete simulations?
If not, is there another possibility to force the simulations to complete? Thanks, Alex ________________________________________ From: gromacs.org_gmx-users-boun...@maillist.sys.kth.se [gromacs.org_gmx-users-boun...@maillist.sys.kth.se] on behalf of Justin Lemkul [jalem...@vt.edu] Sent: Friday, February 06, 2015 12:07 AM To: gmx-us...@gromacs.org Subject: Re: [gmx-users] Umbrella Samling Alteration On 2/4/15 7:22 PM, Alexander Law wrote: > Hi Justin > > The runs have started but they are not currently running, as in they were > cancelled and I can start them up again using the .cpt file. Is it still > possible to alter add the -nsteps in this case? > That should always be possible. Try it and see. -Justin > Many Thanks, > Alex > ________________________________________ > From: gromacs.org_gmx-users-boun...@maillist.sys.kth.se > [gromacs.org_gmx-users-boun...@maillist.sys.kth.se] on behalf of Justin > Lemkul [jalem...@vt.edu] > Sent: Tuesday, February 03, 2015 1:51 AM > To: gmx-us...@gromacs.org > Subject: Re: [gmx-users] Umbrella Samling Alteration > > On 2/1/15 11:22 PM, Alexander Law wrote: >> Dear Gromacs Users >> >> I am currently running the series of simulations using the following command: >> >> mdrun -deffnm umbrella0 -pf pullf-umbrella0.xvg -px pullx-umbrella0.xvg >> >> I wish to lessen the amount of time for each of these simulations from 10 ns >> to 6 ns. These simulations are already up to around 5 ns, is it possible to >> change the time to 6 ns without altering the md_umbrella.mdp file and >> starting agin? Also, will this reduction have any major impacts on the >> quality/efficacy of the data? >> > > Use mdrun command-line option -nsteps to override the number of steps > specified > in the .tpr file, but you can't do this if the runs are in progress. > > -Justin > > -- > ================================================== > > Justin A. Lemkul, Ph.D. > Ruth L. Kirschstein NRSA Postdoctoral Fellow > > Department of Pharmaceutical Sciences > School of Pharmacy > Health Sciences Facility II, Room 629 > University of Maryland, Baltimore > 20 Penn St. > Baltimore, MD 21201 > > jalem...@outerbanks.umaryland.edu | (410) 706-7441 > http://mackerell.umaryland.edu/~jalemkul > > ================================================== > -- > Gromacs Users mailing list > > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > > * For (un)subscribe requests visit > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a > mail to gmx-users-requ...@gromacs.org. > This email may be confidential and subject to legal privilege, it may > not reflect the views of the University of Canterbury, and it is not > guaranteed to be virus free. If you are not an intended recipient, > please notify the sender immediately and erase all copies of the message > and any attachments. > > Please refer to http://www.canterbury.ac.nz/emaildisclaimer for more > information. > -- ================================================== Justin A. Lemkul, Ph.D. Ruth L. Kirschstein NRSA Postdoctoral Fellow Department of Pharmaceutical Sciences School of Pharmacy Health Sciences Facility II, Room 629 University of Maryland, Baltimore 20 Penn St. Baltimore, MD 21201 jalem...@outerbanks.umaryland.edu | (410) 706-7441 http://mackerell.umaryland.edu/~jalemkul ================================================== -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org. This email may be confidential and subject to legal privilege, it may not reflect the views of the University of Canterbury, and it is not guaranteed to be virus free. If you are not an intended recipient, please notify the sender immediately and erase all copies of the message and any attachments. Please refer to http://www.canterbury.ac.nz/emaildisclaimer for more information. -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org.
